IPv6-Oriented 4xOC-768 Packet Classification with Deriving-Merging Partition and Field-Variable Encoding Algorithm

Zhang, Xiaodan; Liu, B.; Li, W.; Xi, Yue; Bermingham, David; Wang, Xiaojun

doi:10.1109/infocom.2006.241

Cited by 47 publications

(15 citation statements)

References 8 publications

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“…Gene annotation was performed by BLAST searching against the non-redundant (NR) database at NCBI 1 , Swiss-Prot 2 , cluster of orthologous groups of proteins (COG), protein family (Pfam) database, and gene ontology (GO) databases with an E-value cut-off of 1e-5 to retrieve proteins with the highest sequence similarity along with their putative functional annotations (Altschul et al, 1997;Ashburner et al, 2000;Deng et al, 2006). The BLAST results were then imported into KOBAS2.0 software 3 for Kyoto encyclopedia of genes and genomes (KEGG) annotation (Kanehisa, 2004;Xie et al, 2011).…”

Section: Functional Annotation and Identification Of Chemosensory Recmentioning

confidence: 99%

Identification of Candidate Chemosensory Receptors in the Antennae of the Variegated Cutworm, Peridroma saucia Hübner, Based on a Transcriptome Analysis

Sun

Dong

et al. 2020

Front. Physiol.

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Insect chemoreception, including olfaction and gustation, involves several families of genes, including odorant receptors (ORs), ionotropic receptors (IRs), and gustatory receptors (GRs). The variegated cutworm Peridroma saucia Hübner (Lepidoptera: Noctuidae) is a worldwide agricultural pest that causes serious damage to many crops. To identify such olfactory and gustatory receptors in P. saucia, we performed a systematic analysis of the antennal transcriptome of adult P. saucia through Illumina sequencing. A total of 103 candidate chemosensory receptor genes were identified, including 63 putative ORs, 10 GRs, 24 IRs, and 6 ionotropic glutamate receptors (iGluRs). Phylogenetic relationships of these genes with those from other species were predicted, and specific chemosensory receptor genes were analyzed, including ORco, pheromone receptors (PRs), sugar receptors, CO 2 receptors, and IR coreceptors. RT-qPCR analyses of these annotated genes revealed that 6 PRs were predominantly expressed in male antennae; 3 ORs, 1 GR, 2 IRs, and 2 iGluRs had higher expression levels in male than in female antennae; and 14 ORs, 1 GR, and 3 IRs had higher expression levels in female than in male antennae. This research increases the understanding of olfactory and gustatory systems in the antennae of P. saucia and facilitates the discovery of novel strategies for controlling this pest.

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Section: Functional Annotation and Identification Of Chemosensory Recmentioning

confidence: 99%

Identification of Candidate Chemosensory Receptors in the Antennae of the Variegated Cutworm, Peridroma saucia Hübner, Based on a Transcriptome Analysis

Sun

Dong

et al. 2020

Front. Physiol.

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“…Finally, using the dual methods of De Bruijn mapping and sequencing read information analysis, each transcript sequence was identi ed in each fragment set. The Unigene sequence was compared with the gene sequence in NR [46], Swiss-Prot [47], GO [48], COG [49], KOG [50], eggNOG4.5 [51], KEGG database by Blast software [52] (e < 0.00001). Using KOBAS 2.0 [53], the KEGG orthology result of unigenes from KEGG was obtained, and after predicting the amino acid sequence of each unigene, we used HMMER [54] software to compare with the Pfam [55] database, select unigenes whose BLAST parameter E-values were not greater than 1e -5 and whose HMMER parameter Evalues were not more than 1e -10 , and thus, nally obtained a unigene with annotation information.…”

Section: De Novo Assembly and Functional Annotationmentioning

confidence: 99%

De novo transcriptome sequencing and anthocyanin metabolite analysis reveals leaf color of Acer pseudosieboldianum in autumn

Gao

Zhao

Zhang

et al. 2020

Preprint

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Background Leaf color is an important ornamental trait of colored-leaf plants. The change of leaf color is closely related to the synthesis and accumulation of anthocyanins in leaves. Acer pseudosieboldianum is a colored-leaf tree native to Northeastern China, however, there was less knowledge in Acer about anthocyanins biosynthesis and many steps of the pathway remain unknown to date. Results Anthocyanins metabolite and transcript profiling were conducted using HPLC and ESI-MS/MS system and high-throughput RNA sequencing respectively. The results demonstrated that five anthocyanins were detected in this experiment. It is worth mentioning that Peonidin O-hexoside and Cyanidin 3 5-O-diglucoside were abundant, especially Cyanidin 3 5-O-diglucoside displayed significant differences in content change at two periods, meaning it may be play an important role for the final color. Transcriptome identification showed that a total of 67.47 Gb of clean data were obtained from our sequencing results. Functional annotation of unigenes, including comparison with COG and GO databases, yielded 35,316 unigene annotations. 16,521 differentially expressed genes were identified from a statistical analysis of differentially gene expression. The genes related to leaf color formation including PAL, ANS, DFR, F3H were selected. Also, we screened out the regulatory genes such as MYB, bHLH and WD40. Combined with the detection of metabolites, the gene pathways related to anthocyanin synthesis were analyzed. Conclusion Cyanidin 3, 5-O-diglucoside played an important role for the final color. The genes related to leaf color formation including PAL, ANS, DFR, F3H and regulatory genes such as MYB, bHLH and WD40 were selected. This study enriched the available transcriptome information for A. pseudosieboldianum and identified a series of differentially expressed genes related to leaf color, which provides valuable information for further study on the genetic mechanism of leaf color expression in A. pseudosieboldianum.

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“…Clean data were mapped to the L. chinense genome sequence (NCBI, Bio Project, PRJNA418360) with HISAT2 (v2.0.5) [31,32]. The NR, Swiss-Prot, Gene Ontology (GO), Clusters of Orthologous Groups (COG), Eukaryotic Orthologous Groups (KOG), Kyoto Encyclopedia of Genes and Genomes (KEGG), and Pfam databases were used [33][34][35][36][37][38][39].…”

Section: Data Analysis For Rna-seq Experimentsmentioning

confidence: 99%

Transcriptomic and microstructural analyses in Liriodendron tulipifera Linn. reveal candidate genes involved in nectary development and nectar secretion

Liu

2019

Preprint

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Background: Nectar is a major floral attractant and reward for insects that ensures pollination. Liriodendron, a genus of the Magnoliaceae family, includes only two relict species, L. chinense and L. tulipifera, which are considered “basal angiosperms” according to plant evolutionary history. The flowers of Liriodendron plants are insect pollinated and secrete nectar to attract pollinators. To date, the morphology and anatomy of nectaries, the mechanism of nectar secretion and the molecular mechanism of nectary development in Liriodendron remain poorly understood. Methods: In this study, we examined the nectary surface cells and change in starch in L. tulipifera by using scanning electron microscopy and periodic acid-Schiff techniques to select appropriate samples for subsequent research. Transcriptome sequencing was of the top and middle parts of immature nectaries and the middle part of mature and postsecretory nectaries in L. tulipifera was performed. We evaluated the expression profiles of 21 DEGs that are closely related to nectary development and nectar secretion for real-time quantitative PCR analysis. Results: L. tulipifera nectaries are starch-storing nectaries and are located in the top and middle parts of L. tulipifera petals. After analyzing the RNA-seq data, we obtained 115.26 Gb of clean data in 12 libraries and mapped the results to the L. chinense reference genome with 71.02%-79.77% efficiency. In total, 26,955 DEGs were identified by performing six pairwise comparisons. The flavonoid biosynthesis, phenylpropanoid biosynthesis, anthocyanin biosynthesis and starch and sucrose metabolism pathways were enriched and related to nectar secretion and pigment change. We identified 56 transcription factor families, and members of the TCP, Trihelix, C2H2, ERF, and MADS families changed dynamically during nectary development. Moreover, to further verify the accuracy of the RNA-seq results, we validated the expression profiles of 21 candidate genes. Conclusions: We evaluated the nectary development and secretion processes comprehensively and identified many related candidate genes in L. tulipifera. These findings suggest that nectaries play important roles in flavonoid synthesis and petal color presentation.

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IPv6-Oriented 4xOC-768 Packet Classification with Deriving-Merging Partition and Field-Variable Encoding Algorithm

Cited by 47 publications

References 8 publications

Identification of Candidate Chemosensory Receptors in the Antennae of the Variegated Cutworm, Peridroma saucia Hübner, Based on a Transcriptome Analysis

Identification of Candidate Chemosensory Receptors in the Antennae of the Variegated Cutworm, Peridroma saucia Hübner, Based on a Transcriptome Analysis

De novo transcriptome sequencing and anthocyanin metabolite analysis reveals leaf color of Acer pseudosieboldianum in autumn

Transcriptomic and microstructural analyses in Liriodendron tulipifera Linn. reveal candidate genes involved in nectary development and nectar secretion

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